bims-proned Biomed News
on Proteostasis in neurodegeneration
Issue of 2026–09–27
fourteen papers selected by
Verena Kohler, Umeå University



  1. bioRxiv. 2026 Sep 14. pii: 2026.09.09.750398. [Epub ahead of print]
      The frequent coexistence of α-synuclein (α-syn) and amyloid-β (Aβ) aggregates in neurodegenerative diseases suggests that heterotypic interactions between these amyloidogenic proteins may influence disease progression, yet their molecular consequences remain poorly understood. Here, we investigated how distinct aggregation states of Aβ42, monomers and preformed fibrils (PFFs), modulate α-syn fibril formation, structure, and downstream neuronal pathology. Thioflavin T kinetics showed that Aβ42 monomers delayed α-syn fibril formation, whereas Aβ42 PFFs exhibited a trend toward accelerated aggregation, indicating aggregation state-dependent effects on α-syn aggregation. Negative-stain TEM, proteinase K digestion, and solid-state NMR spectroscopy further demonstrated that both Aβ42 monomers and PFFs altered α-syn fibril structure, generating distinct fibril conformations depending on the Aβ42 concentration and aggregation state. To determine whether these conformational differences influence pathological activity, α-syn PFF variants generated in the presence of different concentrations of Aβ42 monomers or PFFs were applied to dopaminergic neuronal cells. α-Syn fibrils formed in the presence of Aβ42 PFFs showed greater capacity to induce intraneuronal α-syn aggregation than α-syn PFFs, whereas fibrils formed in the presence of Aβ42 monomers exhibited similar or reduced seeding capacity relative to α-syn PFFs. Together, our findings demonstrate that heterotypic interactions with Aβ42 reshape α-syn aggregation pathways and fibril conformations, generating structurally distinct α-syn fibril populations with different neuronal seeding activities. These results provide a molecular framework for understanding how cross-talk between amyloidogenic proteins may contribute to structural and pathological heterogeneity in mixed neurodegenerative diseases.
    DOI:  https://doi.org/10.64898/2026.09.09.750398
  2. Front Cell Dev Biol. 2026 ;14 1906331
      Aging is the major risk factor for synucleinopathies, including Parkinson's disease, dementia with Lewy bodies, and multiple system atrophy. However, the molecular mechanisms linking aging to. α-Synuclein cytotoxicity remain incompletely understood. The progressive decline of proteostasis is central among these mechanisms, as the ubiquitin-proteasome system (UPS) and the autophagy-lysosome pathway fail to maintain the turnover of aggregation-prone proteins. In this review, we focus on the bidirectional crosstalk between α-Synuclein and the proteasome as a key driver of proteostasis collapse in synucleinopathies. Proteasome activity declines during aging, and proteasomal dysfunction is closely associated with disease progression. We first discuss how. α-Synuclein structure and posttranslational modifications determine whether the protein is targeted for degradation by the UPS or autophagy or instead acts as a proteolytic inhibitor. Next, the mechanisms by which pathogenic α-synuclein species interact with and impair 20S/26S proteasomes, affecting proteolytic activity, subunit composition, and complex assembly, are discussed. These interactions establish a self-amplifying cycle of proteasome inhibition and α-Synuclein accumulation. As a consequence, the cellular capacity to clear misfolded proteins progressively declines, promoting toxic α-Synuclein aggregation and neurodegeneration. We further discuss the importance of autophagy on α-Synuclein turnover and how this is impaired in synucleinopathies. Finally, we highlight emerging therapeutic strategies aimed at restoring proteasome function and proteostasis. A deeper understanding of how α-Synuclein-proteasome interactions change during ageing may reveal new molecular targets and support the development of disease-modifying therapies for synucleinopathies.
    Keywords:  20S proteasome; 26S proteasome; Parkinson disease; UPS; alpha-Synuclein; autophagy; posttranslational modifications; protein homeostasis
    DOI:  https://doi.org/10.3389/fcell.2026.1906331
  3. Int J Mol Sci. 2026 Sep 13. pii: 8152. [Epub ahead of print]27(18):
      Alzheimer's disease (AD) is an unremitting neurodegenerative disorder characterized by the presence of extracellular β-amyloid (Aβ)-containing neuritic plaques, intracellular tau-positive neurofibrillary tangles and loss of selected neurons in the brain. Evidence suggests that aggregation of Aβ and tau via synergistic interactions initiates a cascade of events, leading to development of AD pathology. Thus, many studies are being pursued to develop small molecules/drugs that can target both Aβ and tau as an effective AD treatment strategy. In this study, we evaluated effects of native PLGA nanoparticles on tau-mediated Aβ1-42 aggregation using biophysical, structural, spectroscopic and biochemical approaches. Our results show that 0N4R tau seeds enhanced Aβ1-42 aggregation, and that this effect is mitigated by native PLGA. Additionally, PLGA inhibited Aβ1-42 aggregation induced by both 0N4R and 2N4R tau isoforms. The presence of PLGA during the formation of tau seeds or pretreatment of tau seeds with PLGA attenuates subsequent Aβ1-42 aggregation. Interestingly, monomeric 0N4R tau, unlike 0N4R tau seeds, suppressed Aβ1-42 aggregation, which is diminished further by PLGA nanoparticles. However, we have not addressed the implications of native PLGA on tau/Aβ1-42 interaction using any cellular or animal models of AD. Nevertheless, our results reveal that tau seeds and monomeric tau can differentially influence Aβ1-42 aggregation, which is mitigated by native PLGA under in vitro conditions, providing a rationale to study it further under an in vivo paradigm to examine its significance in AD pathogenesis.
    Keywords:  Alzheimer’s disease; Aβ aggregation; PLGA nanoparticles; tau monomer; tau seeds
    DOI:  https://doi.org/10.3390/ijms27188152
  4. Bull Math Biol. 2026 Sep 19. pii: 181. [Epub ahead of print]88(10):
      Aberrant protein aggregation is implicated in many neurodegenerative diseases and is strongly modulated by intracellular spatial constraints such as macromolecular crowding and clearance. Computational studies of aggregation, however, frequently lack the documentation and provenance required for independent reproduction. We present a spatial, lattice-based agent‑based model of intracellular protein aggregation implemented in Julia and packaged as a research software object aligned with the FAIR (Findable, Accessible, Interoperable, and Reusable) principles. Individual monomers undergo reversible activation, oligomer nucleation, aggregate growth, and optional oligomer clearance; stochastic movement and local encounters on a 3D face-centered cubic lattice capture spatial heterogeneity and crowding. The accompanying repository includes centralized parameters, machine-readable metadata, version-pinned dependencies, example runs, and automated post-simulation analysis. Ensemble simulations reproduce canonical aggregation phases (lag, nucleation, growth, saturation) and illustrate that oligomer removal reduces the final aggregate burden. The model also supports configurable macromolecular crowding via spherical obstacles, enabling systematic exploration of crowding effects on aggregation kinetics. Runtime benchmarking shows that 300 independent simulations (1,000 monomers; 5,000 timesteps), executed as 15 concurrent single-threaded jobs on institutional high-performance computing resources, completed in approximately 25 h of wall-clock time, enabling parameter sweeps and ensemble averaging. Together, the model and its FAIR packaging provide a reproducible template for transparent, extensible agent-based computational biology.
    Keywords:  Agent-based modeling; Computational reproducibility; FAIR principles; Julia programming; Macromolecular crowding; Neurodegenerative diseases; Protein aggregation
    DOI:  https://doi.org/10.1007/s11538-026-01739-8
  5. Bio Protoc. 2026 Sep 20. 16(18): e5815
      Cytoplasmic protein aggregation is a defining feature of multiple neurodegenerative diseases, including amyotrophic lateral sclerosis, frontotemporal dementia, Huntington's disease, and certain forms of motor neuron disease. Recent evidence indicates that promyelocytic leukemia protein (PML) and engineered PML-derived variants can act as versatile aggregate-remodeling factors. In particular, cytoplasmically redirected PML variants recognize pathological cytoplasmic inclusions and promote their clearance. Here, we describe a protocol to generate and validate two engineered cytoplasmic PML variants: full-length mPML, which is redirected to the cytoplasm by disruption of its nuclear localization sequence, and the truncated mPMLΔRBC variant, which lacks the RING, B-box, and coiled-coil domain but retains aggregate-reducing activity. The protocol integrates fluorescence-based imaging, bimolecular fluorescence complementation, detergent-soluble/insoluble fractionation, and validation in primary rat cortical neurons. This workflow provides a practical platform for assessing cytoplasmic aggregate burden and for comparing the aggregate-remodeling activities of PML-derived constructs. It can also be adapted to other disease-associated aggregation-prone proteins, including TDP-43, SOD1, FUS, tau, polyGA, and polyQ-expanded proteins. Key features • Describes the generation and validation of two complementary cytoplasmic PML variants: full-length mPML and truncated mPMLΔRBC. • Provides fluorescence-based and BiFC-based assays to visualize pathological cytoplasmic protein assemblies. • Includes detergent-soluble/insoluble fractionation for biochemical assessment of aggregate burden. • Establishes a primary rat cortical neuron workflow to evaluate the effect of mPML on TDP-43-CTF aggregates. • Can be adapted to other aggregation-prone proteins and additional PML-derived aggregate-remodeling candidates.
    Keywords:  Aggregate clearance; Cytoplasmic protein aggregates; Neurodegeneration; PML; SOD1; TDP-43
    DOI:  https://doi.org/10.21769/BioProtoc.5815
  6. J Biomed Sci. 2026 Sep 24. pii: 90. [Epub ahead of print]33(1):
       BACKGROUND: Huntington's disease (HD) is a neurodegenerative disorder caused by abnormal expansions of poly-glutamine repeats in the mutant Huntingtin (mHTT). The expanded proteins form pathological aggregates to disrupt neuronal functions during disease progression, suggesting the clearance of the aggregates is considered as a potential direction for development of therapy. Our previous studies have demonstrated one specific microRNA, miR-196a, downregulates mHTT aggregates and improves the pathological phenotypes in HD. However, the detailed mechanism remains unclear.
    METHODS: Proteomic analyses and bioinformatic tools were used to identify putative miR-196a targets in HD, and the expression of one target gene, Rad23b, was manipulated in different HD models to assess its role in mHTT aggregates.
    RESULTS: Here, we identify Rad23b as a key target, and miR-196a directly downregulates Rad23b to reduce mHTT aggregates and toxicity. We also show Rad23b overexpression worsens mHTT pathology, while its knockdown or knockout diminishes aggregates, primarily through the ubiquitin-proteasome system (UPS). Moreover, Rad23b interacts with mHTT aggregates via its ubiquitin-binding domains, and promotes their ubiquitination; however, Rad23b disrupts the chymotrypsin-like activity of UPS, and contributes to mHTT accumulation. In transgenic mouse models in vivo, Rad23b increases mHTT aggregates and cell death in brains, and also worsens motor dysfunction in HD transgenic mice.
    CONCLUSIONS: These findings demonstrate that critical role of Rad23b in miR-196a-reduced pathological aggregates, and highly suggest downregulating Rad23b or disrupting its interaction with mHTT may offer novel strategies to mitigate mHTT aggregates to delay disease progression.
    Keywords:  Huntington's disease; Protein aggregation; Proteomic analysis; Rad23b; Ubiquitin-proteasome system; miR-196a
    DOI:  https://doi.org/10.1186/s12929-026-01292-5
  7. Int J Biol Macromol. 2026 Sep 24. pii: S0141-8130(26)04574-5. [Epub ahead of print] 154625
      Besides a well-established protein aggregation-mediated pathologies in neurodegenerative diseases, protein misfolding and subsequent accumulation of non-functional aggregates may also have a role during cancer progression promoting cancer cell survival and affecting drug responses. A number of factors may modulate the process of protein aggregation. However, the role of RNA as a scaffold and its methylation status were not elucidated yet. In the present study, we have used a cellular model of cancer, namely osteosarcoma (OS) cells to investigate RNA-mediated amyloid-β (Aβ) aggregation in the biological system not related to Aβ-mediated pathology. In the presence of Aβ25-35, RNA isolated from OS cells promoted the formation of protein aggregates in a concentration-dependent manner in vitro. Drug-induced senescent OS cells devoid of two m5C RNA methyltransferases TRDMT1 and NSUN2 had limited ability to form protein aggregates. Nevertheless, this observation was associated with rRNA status and the expression of rRNA-related genes rather than RNA methylation. In contrast, RNA secreted by senescent wild type (WT) OS cells was characterized by increased m5C levels compared to RNA intracellular pools that was accompanied by its ability to stimulate the formation of Aβ25-35 aggregates. In conclusion, we show for the first time that RNA derived from cancer cells may be a scaffold promoting the formation of Aβ25-35 aggregates. More studies are needed to validate the RNA-mediated protein aggregation in cellular systems and its modulation by RNA methylation and rRNA status. RNA amyloidogenic activity should also be assessed in the presence of full-length Aβ.
    Keywords:  Amyloid-Beta; Cancer; Extracellular RNA
    DOI:  https://doi.org/10.1016/j.ijbiomac.2026.154625
  8. Bioelectrochemistry. 2026 Sep 21. pii: S1567-5394(26)00243-4. [Epub ahead of print]174 109457
      α-Synuclein (α-Syn) is a pivotal biomarker for Parkinson's disease (PD) and related synucleinopathies. However, the sensitive and selective detection of pathological α-Syn remains highly challenging because of its low abundance, structural heterogeneity, and diverse aggregation states. No single analytical platform currently meets all requirements for routine clinical screening. Electrochemical biosensors have emerged as a powerful tool to address these bottlenecks, offering high sensitivity, rapid response, low cost, and great potential for point-of-care testing (POCT). This review systematically summarizes the role of α-Syn in PD pathogenesis and highlights recent advances in electrochemical detection strategies, including immunosensors, aptasensors, molecularly imprinted polymers (MIPs), electrochemiluminescence (ECL), photoelectrochemical (PEC) systems, and integrated portable devices. Furthermore, current challenges are emphasized, particularly in low-abundance detection, matrix interference, conformational discrimination, and clinical standardization. Finally, future perspectives in this field are outlined, focusing on multiplex biomarker platforms and artificial intelligence (AI)-assisted analytical strategies for the early diagnosis and management of neurodegenerative diseases.
    Keywords:  Biomarker; Electrochemical biosensors; Parkinson's disease; Point-of-care testing; α-Synuclein
    DOI:  https://doi.org/10.1016/j.bioelechem.2026.109457
  9. Cells. 2026 Sep 09. pii: 1631. [Epub ahead of print]15(18):
      Neurodegenerative diseases share features of neuronal loss, neuroinflammation, and protein aggregation. The cGAS-STING pathway, a key DNA sensor, mediates neuroinflammation via TBK1-IRF3 and IKK-NF-κB axes, inducing type I interferons and pro-inflammatory cytokines. This pathway upregulates ZBP1, promotes PANoptosome assembly, and triggers PANoptosis, releasing DAMPs and creating a self-amplifying "inflammation-death" cycle. In Alzheimer's, Parkinson's, and amyotrophic lateral sclerosis, pathological proteins (Aβ, Tau, α-synuclein, TDP-43) or genetic defects (e.g., C9orf72 repeats) cause mitochondrial DNA leakage or genomic instability, activating this axis. This review highlights the cGAS-STING-PANoptotic cascade as a shared pathogenic mechanism and discusses the current evidence and remaining challenges in confirming this hypothesis.
    Keywords:  PANoptosis; cGAS-STING; cell death; neurodegenerative diseases; neuroinflammation
    DOI:  https://doi.org/10.3390/cells15181631
  10. Front Aging Neurosci. 2026 ;18 1831375
      Neurodegenerative diseases, including Alzheimer's disease (AD), Parkinson's disease (PD), and amyotrophic lateral sclerosis (ALS), are characterized by pronounced clinical and molecular heterogeneity, as well as highly interconnected pathogenic pathways. This biological complexity has long hindered efforts to systematically define disease mechanisms and to develop effective, targeted therapies. In recent years, clustered regularly interspaced short palindromic repeats (CRISPR) based functional genomic screening technologies have emerged as powerful tools for large-scale genetic perturbation in cellular, organoid, and in vivo models, enabling unbiased interrogation of disease relevant genetic networks and the identification of potential therapeutic targets. In this review, we summarize CRISPR knockout, CRISPR interference, CRISPR activation, and in vivo screening studies in AD, PD, and ALS, with emphasis on pathological phenotypes, experimental models, cell types, validation strategies, and evidence strength. In AD, these screens have identified regulators of amyloid-β (Aβ) production, Tau homeostasis and propagation, microglial states, neuronal aging, and stress responses. In PD, they have provided insights into α-synuclein (α-syn) homeostasis, mitochondrial quality control, lysosomal trafficking, and transplanted dopaminergic neuron survival. In ALS, they have identified modifiers of C9orf72-associated toxicity, repeat-associated non-AUG translation, TAR DNA-binding protein 43 (TDP-43) inclusion formation, and ATXN2 homeostasis. Cross-disease comparison indicates recurring involvement of proteostasis, endolysosomal function, mitochondrial regulation, and cellular stress responses, although individual screening hits show limited overlap and remain strongly influenced by experimental context. Overall, CRISPR-based screening provides a useful framework for identifying candidate disease modifiers, but further validation across complementary human-relevant and in vivo models is required before therapeutic translation.
    Keywords:  Alzheimer's disease; CRISPR-based screening; Parkinson's disease; amyotrophic lateral sclerosis; neurodegeneration
    DOI:  https://doi.org/10.3389/fnagi.2026.1831375
  11. FEBS Lett. 2026 Sep 22.
      Intrinsically disordered proteins (IDPs) are often readily characterized as soluble monomers, whereas their biological and pathological roles frequently involve transient, heterogeneous, or sparsely populated oligomers. Such assemblies are often described as 'invisible' but invisibility is method-dependent: Oligomers that escape direct detection by one technique may remain accessible through indirect or complementary measurements. Solution NMR is uniquely positioned to exploit exchange between observable monomers and NMR-invisible oligomers, providing residue-specific information on populations, kinetics, and intermolecular contacts. Other methods report on mass, stoichiometry, dimensions, morphology, or site-specific distance distributions. Here, we discuss how integrating orthogonal measurements can overcome method-specific blind spots and yield a self-consistent model that simultaneously accounts for structure, populations, exchange kinetics, and morphology, something no single method can provide.
    Keywords:  amyloid; intrinsically disordered proteins; protein aggregation; solution NMR; spectroscopy; transient oligomers
    DOI:  https://doi.org/10.1002/1873-3468.70474
  12. Cell Rep. 2026 Sep 25. pii: S2211-1247(26)01139-3. [Epub ahead of print]45(10): 118060
      Amyloid aggregates of α-Synuclein are hallmarks of Parkinson's disease (PD) and related neurodegenerative disorders. Literature suggests that mRNA G-quadruplexes (rG4s) bind to α-Synuclein, facilitating its amyloidogenesis. In parallel, α-Synuclein interacts with RNA-binding proteins (RBPs) within cytosolic RNA-protein granules to modulate mRNA stability. However, mechanisms by which α-Synuclein-interacting RBPs regulate its amyloidogenesis remain unexplored. Here, we report that rG4-dependent cytosolic interaction with the DEAD-box helicase DDX39A decelerates α-Synuclein amyloidogenesis. Notably, viral infections transiently elevate rG4s in the cytoplasm. Perturbing interactions between α-Synuclein and DDX39A using genomic rG4-sequences from H1N1 Influenza and SARS-CoV-2 expedites intracellular amyloidogenesis. Conversely, DDX39A overexpression alleviates α-Synuclein amyloidogenesis in SARS-CoV-2-infected primary neurons. We demonstrate that while DDX39A unwinds viral rG4s to mitigate α-Synuclein sol-gel transition, its cooperative phase separation with α-Synuclein enhances the helicase's rG4-unwinding activity. We propose that accelerated α-Synuclein amyloidogenesis reflects a trade-off within this RNA-protein equilibrium and might contribute to the viral etiology of PD.
    Keywords:  CP: molecular biology; DDX39A; RNA G-quadruplex; amyloids; phase separation; viral infection; α-Synuclein
    DOI:  https://doi.org/10.1016/j.celrep.2026.118060
  13. Biomolecules. 2026 Sep 05. pii: 1286. [Epub ahead of print]16(9):
      Over more than a decade of development, various data-driven computational approaches based on the physicochemical properties of proteins have been developed for estimating the aggregation potential of proteins. The currently available algorithms and models enable a sequence-based design strategy to predict regions prone to transform into liquid-liquid phase-separated (LLPS) condensed or solidified aggregated states; for the latter, one can distinguish amyloid and prion-like aggregates. In this study, we performed a comprehensive in silico experiment; more than 40 models were used to test amino acid sequences of various proteins known to aggregate in neurodegenerative diseases, certain progressive myoclonic epilepsies and mental illnesses. Altogether, 20 proteins were analyzed and their proneness to aggregate or condensate was discussed in view of their possible normal and/or toxic function. The reported large set of computational models enables highly accurate predictions of proteins that are prone to aggregation and/or condensation. Furthermore, such aggregation profiling can be performed for any protein sequence of interest.
    Keywords:  amyloid; in silico models; liquid–liquid phase separation—LLPS; prediction from amino acid sequence; prion; protein aggregation; protein condensation
    DOI:  https://doi.org/10.3390/biom16091286
  14. bioRxiv. 2026 Sep 20. pii: 2026.09.17.752169. [Epub ahead of print]
      TAR DNA-binding protein 43 (TDP-43) is a key pathological hallmark of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD) and a critical regulator of RNA splicing. While loss of TDP-43 induces aberrant splicing in linear transcripts, its impact on circular RNA (circRNA) biogenesis remains unexplored. Here, we show that TDP-43 depletion in human neurons induces widespread circRNA changes, especially upregulation of a distinct class of cryptic circRNAs that arise specifically upon loss of TDP-43. Some of these cryptic circRNAs incorporate cryptic exons derived from intronic sequences. Notably, these cryptic circRNAs exhibit greater stability than their corresponding linear RNA isoforms and accumulate progressively in neurons. Moreover, cryptic circRNAs are elevated in postmortem brain tissues from ALS, FTD and Alzheimer's disease (AD) patients. These findings reveal a previously unrecognized role for TDP-43 in repressing cryptic circRNA formation and establish these circRNAs as stable molecular signatures of TDP-43 dysfunction.
    DOI:  https://doi.org/10.64898/2026.09.17.752169